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Hello there,
I have used Amplicon suite on one cohort and it detected eccDNA in 6 out of 23 samples. Next I wanted to try it on another cohort with tumor-normal paired fastq files, but I have not yet…
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amplicon notebooks rely on platemaps generated with spreadsheets instead of the new matrix tubes + VisionMate sample accession workflow. Generate new notebook that will allow to use the new matrix tub…
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Hello!
I am trying to run readfish with Icarust and I cant seem to fix this error:
2024-05-30 17:49:24,430 readfish /home/user/miniforge3/bin/readfish targets --port 10000 --toml test.toml --device…
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My command for alignment is:
```
mixcr align -f -t 24 -Xmx160g -b default -p generic-amplicon-with-umi --species hsa --rna --tag-pattern "^(UMI:NNNNtNNNNtNNNN)tN{7:8}(R1:*)\^N{17}(R2:*)" --tag-par…
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This tool is apparently fussy about BED recording ordering, check and verify, ideally bake into CI tests
bede updated
3 months ago
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Hello @rcedgar,
I noticed that the NBC algorithm is also not there in v12, which is widely used for amplicon/marker gene classification. Again I understand that we can rely on the binary for v11.0.…
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## Checklist before submitting the issue:
- [x] The issue is strongly related to the MiXCR software
- [x] The issue can be reproduced with [the most recent version](https://github.com/milaborato…
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Hello dear developers,
I am writing to ask you for some advice regarding the usage of your tool.
As of today, I've run a few tests on different viral genomes to test the tool, but I've always bump…
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I am one of the developers of a [LSU](https://github.com/c383d893/AMF-LSU-Database-and-Pipeline2) pipeline that heavily utilizes Qiime 2. We have a custom yml as part of our install script that is bas…
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### Description of the bug
Hello, I am a newbie to nf-core sarek and I am running it on WES data for tumor-only, using CNVkit tool. Even though the pipeline completes successfully, the CNVkit tool …